{"id":"W4390034971","doi":"10.1101/2023.12.20.572033","title":"Multimodal analysis unveils tumor microenvironment heterogeneity linked to immune activity and evasion","year":2023,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Princess Margaret Cancer Centre; University Health Network","funders":"Oesterreichische Nationalbank; Österreichischen Akademie der Wissenschaften; Rosetrees Trust; European Commission; National Institute for Health and Care Research; Universität Innsbruck; Austrian Science Fund; University College London; Cancer Research UK; Wellcome Trust","keywords":"Immunotherapy; Immune system; Tumor microenvironment; Biology; Transcriptome; Cancer immunotherapy; Computational biology; Immune checkpoint; Cancer; Cancer research; Immunology; Gene; Genetics; Gene expression","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0004549559,0.0005902406,0.0006760024,0.0002643595,0.0001750965,0.0001364857,0.0004417228,0.0005263111,0.000008174204],"category_scores_gemma":[0.00009400648,0.0006483283,0.0003734125,0.0003666553,0.0001149669,0.000007453278,0.0008592802,0.0004255231,0.00002966879],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001226746,"about_ca_system_score_gemma":0.0001455988,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003238108,"about_ca_topic_score_gemma":0.00006414136,"domain_scores_codex":[0.9971203,0.0001618987,0.0004470756,0.00146201,0.0002739503,0.0005348084],"domain_scores_gemma":[0.9979019,0.00002078394,0.0002472559,0.00134892,0.0001247834,0.0003563196],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001338848,0.0001790099,0.02703329,0.0001238067,0.0007765263,0.00001850861,0.000005427466,0.000752404,0.9709478,0.000001152177,0.00002180727,0.000006355019],"study_design_scores_gemma":[0.0003347827,0.00009236315,0.401207,0.00004658329,0.0003235619,1.216075e-8,8.638264e-7,0.0005875522,0.5964036,1.509984e-7,0.0005277485,0.0004758096],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9916984,0.0006638992,0.005758138,0.0001456109,0.0005407595,0.0006823971,0.0004037764,0.0001063405,6.992141e-7],"genre_scores_gemma":[0.9955683,0.0004850192,0.003224257,0.0001587242,0.0002877155,0.000135542,0.000005212828,0.0001250551,0.00001014229],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3745442,"threshold_uncertainty_score":0.9995968,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.016431636549159,"score_gpt":0.2272592315131581,"score_spread":0.2108275949639991,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}